Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 312 of 318
Found at i:98523057 original size:22 final size:22
Alignment explanation
Indices: 98523029--98523104 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
98523019 AAGTGTGTAT
98523029 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
* *
98523051 ATGTGATGAATG-TGAAAGTGTG-TA
1 ATGTGAT-AAGGCTG-AA-TG-GCCA
*
98523075 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
98523098 ATGTGAT
1 ATGTGAT
98523105 GAATGTGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 8 0.19
25 9 0.21
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:98523064 original size:47 final size:47
Alignment explanation
Indices: 98522994--98523196 Score: 286
Period size: 47 Copynumber: 4.3 Consensus size: 47
98522984 AGCTTAAGAT
98522994 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
*
98523041 TGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* * *
98523088 CGAATGGCCAATGTGATGAATGTGAAAGTGCGTACATGAGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
98523135 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
98523180 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
98523197 AAAGTGTGCA
Statistics
Matches: 139, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
45 22 0.16
46 6 0.04
47 111 0.80
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:98523320 original size:39 final size:40
Alignment explanation
Indices: 98523266--98523350 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
98523256 AAATGAATTG
* * * *
98523266 TGCTGAGATTGTATCC-GGGTTAGAGACCCGCTGGCTTTA
1 TGCTGGGATTGTATCCAGGGTTAAAGACCCGCAGGCTTAA
* *
98523305 TGCTGGGATTGTATCCAGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCAGGGTTAAAGACCCGCAGGCTTAA
98523345 TGCTGG
1 TGCTGG
98523351 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 15 0.38
40 24 0.62
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCAGGGTTAAAGACCCGCAGGCTTAA
Found at i:98544083 original size:30 final size:30
Alignment explanation
Indices: 98544049--98544105 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
98544039 TCCTAATGAC
* *
98544049 TTAAAT-AAAGATTTTCGAATAGTTCAGGAT
1 TTAAATCAAA-ATTCTCAAATAGTTCAGGAT
98544079 TTAAATCAAAATTCTCAAATAGTTCAG
1 TTAAATCAAAATTCTCAAATAGTTCAG
98544106 AGATCATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (30 bp):
TTAAATCAAAATTCTCAAATAGTTCAGGAT
Found at i:98550342 original size:22 final size:23
Alignment explanation
Indices: 98550303--98550346 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
98550293 TATTTTTTAA
*
98550303 ATATTTTTTACTTTTTTATTTTTC
1 ATATTTTTTA-TTATTTATTTTTC
98550327 ATATTTTTT-TTATTTATTTT
1 ATATTTTTTATTATTTATTTT
98550347 CACTTAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (23 bp):
ATATTTTTTATTATTTATTTTTC
Found at i:98559147 original size:30 final size:30
Alignment explanation
Indices: 98559080--98559148 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
98559070 AACTGTAGAC
* * *
98559080 GATGGTGCATAAAATGGTGTCGGGGACGAT
1 GATGGTGCAAAAAATGATGGCGGGGACGAT
* * **
98559110 AAAGGTGCAAAAAATGATGGCGGGTTCGAT
1 GATGGTGCAAAAAATGATGGCGGGGACGAT
98559140 GATGGTGCA
1 GATGGTGCA
98559149 TAATAAGATG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.38, T:0.22
Consensus pattern (30 bp):
GATGGTGCAAAAAATGATGGCGGGGACGAT
Found at i:98561604 original size:131 final size:128
Alignment explanation
Indices: 98561386--98561831 Score: 547
Period size: 131 Copynumber: 3.4 Consensus size: 128
98561376 GCACAGTAGA
* * * ** * * * *
98561386 GCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-ATTTT-AGAATTTTGAAAACATGAG
1 GCACGATTCCCCAAATTTC-AAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGAT
*
98561449 TGAAATTCTAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
65 TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
* * * * *
98561513 GCACGATTCCCCGAATTGTCAAACGTTAAACATTACCTTCGTTTTGAAGAATTTTTAAAGACATG
1 GCACGATTCCCCAAATT-TCAAACATCAAACGTTGCCTTCGTTTT-AAGAATTTTTAAA-ACATG
*
98561578 ATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCATGATTA
63 ATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGA-TA
98561643 -G
127 GG
* * * * * *
98561644 GCACAATTCCCTAAATTTCCAAACCTCAAACGTTGCATTCGTTTTAAAAATTTTTAAAACATGGT
1 GCACGATTCCCCAAATTT-CAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGAT
* *
98561709 TGAAATTCCAAAGGAATATTCGATTATTTTGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
65 TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
* * * *
98561773 GCACGATTCTCCAAATTCCCCAACATCGAACGTTGCCTTCGTTTTTAAGAATTTTTAAA
1 GCACGATTCCCCAAATT-TCAAACATCAAACGTTGCCTTCG-TTTTAAGAATTTTTAAA
98561832 TGAATAATTA
Statistics
Matches: 277, Mismatches: 32, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
127 31 0.11
128 7 0.03
129 97 0.35
130 40 0.14
131 100 0.36
132 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (128 bp):
GCACGATTCCCCAAATTTCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGATT
GAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
Found at i:98561776 original size:129 final size:128
Alignment explanation
Indices: 98561386--98561831 Score: 549
Period size: 129 Copynumber: 3.4 Consensus size: 128
98561376 GCACAGTAGA
* * * ** * * *
98561386 GCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-ATTTT-AGAATTTTGAAAACATGAG
1 GCACGATTCC-CAAATTTCCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATG-G
* *
98561449 -TGAAATTCTAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
64 TTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * * * *
98561513 GCACGATTCCCCGAATTGT-CAAACGTTAAACATTACCTTCGTTTTGAAGAATTTTTAAAGACAT
1 GCACGATT-CCCAAATT-TCCAAACATCAAACGTTGCCTTCGTTTT-AAGAATTTTTAAA-ACAT
* *
98561577 GATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCATGATT
62 GGTTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATT
*
98561642 AG
127 GG
* * * *
98561644 GCACAATTCCCTAAATTTCCAAACCTCAAACGTTGCATTCGTTTTAAAAATTTTTAAAACATGGT
1 GCACGATTCCC-AAATTTCCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGGT
*
98561709 TGAAATTCCAAAGGAATATTCGATTATTTTGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
65 TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * *
98561773 GCACGATTCTCCAAATTCCCCAACATCGAACGTTGCCTTCGTTTTTAAGAATTTTTAAA
1 GCACGATTC-CCAAATTTCCAAACATCAAACGTTGCCTTCG-TTTTAAGAATTTTTAAA
98561832 TGAATAATTA
Statistics
Matches: 277, Mismatches: 31, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
127 29 0.10
128 7 0.03
129 99 0.36
130 45 0.16
131 97 0.35
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (128 bp):
GCACGATTCCCAAATTTCCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGGTT
GAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
Found at i:98567773 original size:2 final size:2
Alignment explanation
Indices: 98567766--98567795 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
98567756 GGTTTAAAAA
98567766 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
98567796 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:98568296 original size:45 final size:45
Alignment explanation
Indices: 98568233--98568320 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
98568223 TCTCTACCTA
* *
98568233 TTTATTTCATTCATCATGGATATCAAACACCTTTACCCTAAGTAT
1 TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
* * *
98568278 TTTA-TTCTATTCAACATGGTTATCAAATACTTTTACCCCAAGT
1 TTTATTTC-ATTCAACATGGATATCAAACACCTTTACCCCAAGT
98568321 CTATATTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.08
45 34 0.92
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
Found at i:98569069 original size:66 final size:66
Alignment explanation
Indices: 98568951--98569082 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
98568941 TTTGAAGCTA
* * *
98568951 TAGCTGGAGTTCGTCATATTTTCTTGTTGCCTTTGCTTCCCTTATTGTTGCCTCCACTTTAAGTT
1 TAGCTGGAGTTCATCATATTTTCTTGTAGCCTTTGCTTCCCTTATTGCTGCCTCCACTTTAAGTT
98569016 G
66 G
* * *
98569017 TAGCTGGAGTTCATCATATTTTCTT-TGAGCCTTTGCTT-CTTTCTATGCTGCCTCCGCTTTAAG
1 TAGCTGGAGTTCATCATATTTTCTTGT-AGCCTTTGCTTCCCTTAT-TGCTGCCTCCACTTTAAG
98569080 TTG
64 TTG
98569083 AGCAATTTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 5 0.09
66 53 0.91
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTTCTTGTAGCCTTTGCTTCCCTTATTGCTGCCTCCACTTTAAGTT
G
Found at i:98571110 original size:41 final size:40
Alignment explanation
Indices: 98571065--98571141 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
98571055 CAATTATGAG
* *
98571065 AAAAACACCGCTA-TAGGTTTAACCTTTTGTGGCGTTTATGC
1 AAAAACACCGCTACT-GCTTT-ACCTTTTGCGGCGTTTATGC
*
98571106 AAAAACGCCGCTACTGCTTTACCTTTTGCGGCGTTT
1 AAAAACACCGCTACTGCTTTACCTTTTGCGGCGTTT
98571142 TTCTCATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 15 0.47
41 16 0.50
42 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (40 bp):
AAAAACACCGCTACTGCTTTACCTTTTGCGGCGTTTATGC
Found at i:98576277 original size:19 final size:19
Alignment explanation
Indices: 98576253--98576340 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
98576243 ATCTTCAATT
98576253 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
98576272 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
98576291 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
98576308 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
98576326 ACATGCAATCTTAGA
1 ATATGCAATCTTAGA
98576341 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
17 16 0.25
18 15 0.23
19 34 0.52
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:98576321 original size:35 final size:37
Alignment explanation
Indices: 98576258--98576347 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
98576248 CAATTATATG
98576258 CAATCTTAGATATGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
*
98576294 CAATCTTAGATATGAT-TGCAATCTTAGATATGACATG
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
98576331 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
98576348 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 19 0.38
37 12 0.24
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:98576651 original size:17 final size:17
Alignment explanation
Indices: 98576627--98576661 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98576617 ATGTTTCCCG
*
98576627 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
98576645 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
98576662 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:98586714 original size:78 final size:78
Alignment explanation
Indices: 98586585--98586818 Score: 396
Period size: 78 Copynumber: 3.0 Consensus size: 78
98586575 GTGTTTACGC
* *
98586585 TGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
98586650 ATTTGACCTTCAT
66 ATTTGACCTTCAT
** * *
98586663 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGATGAGCAGATCAAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
*
98586728 ATTGGACCTTCAT
66 ATTTGACCTTCAT
98586741 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
*
98586806 ATCTGACCTTCAT
66 ATTTGACCTTCAT
98586819 GTGTTTACAT
Statistics
Matches: 143, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 143 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
ATTTGACCTTCAT
Found at i:98587003 original size:89 final size:89
Alignment explanation
Indices: 98586848--98587017 Score: 254
Period size: 89 Copynumber: 1.9 Consensus size: 89
98586838 TCCAAGATGA
*
98586848 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTATAT
1 CAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTATAT
*
98586913 TAGACGGTGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * * *
98586937 CAGATTTGGCGTCCCTGTATTAGAC-GAGGAG-AAGATCGAAGATAACAGATTTGGCGTCTCTGT
1 CAGATTTGGCATCCCTGTATTAGACAG-GGAGCAA-ATCGAAGATAACAAATTTGGCATCTCTAT
98587000 ATTAGACGGGGAGCAGAT
64 ATTAGACGGGGAGCAGAT
98587018 CAAAGGTAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
88 3 0.04
89 70 0.96
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (89 bp):
CAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTATAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:98587031 original size:45 final size:45
Alignment explanation
Indices: 98586758--98587018 Score: 260
Period size: 45 Copynumber: 5.8 Consensus size: 45
98586748 GATCCAAGAT
*
98586758 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
98586805 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
98586850 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * * *
98586895 AATTTGGCATCTCTATATTAGACGGTGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
98586939 GATTTGGCGTCCCTGTATTAGACGAGGAGAAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
98586984 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
98587019 AAAGGTAGCA
Statistics
Matches: 170, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 39 0.23
45 99 0.58
46 4 0.02
47 22 0.13
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:98587413 original size:36 final size:35
Alignment explanation
Indices: 98587373--98587452 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 35
98587363 ATGGAAATAT
98587373 AATCTTCAATGATATGCAATCTTAGATATGATATGC
1 AATCTT-AATGATATGCAATCTTAGATATGATATGC
*
98587409 AATCTTAGAT-ATGATACAATCTTAGATATGATATGC
1 AATCTTA-ATGAT-ATGCAATCTTAGATATGATATGC
98587445 AATCTTAA
1 AATCTTAA
98587453 AGGATATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (35 bp):
AATCTTAATGATATGCAATCTTAGATATGATATGC
Found at i:98587460 original size:17 final size:19
Alignment explanation
Indices: 98587381--98587451 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
98587371 ATAATCTTCA
98587381 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
98587400 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
98587419 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
98587436 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
98587452 AAGGATATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:98587767 original size:17 final size:17
Alignment explanation
Indices: 98587743--98587777 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98587733 TGTTTCCCGG
*
98587743 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
98587761 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
98587778 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:98591152 original size:15 final size:15
Alignment explanation
Indices: 98591132--98591162 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
98591122 ATCCCTTTGA
98591132 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
98591147 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
98591162 T
1 T
98591163 GGTCCCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTCTAACAAAATT
Found at i:98594139 original size:16 final size:16
Alignment explanation
Indices: 98594118--98594185 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
98594108 TTTGGTTCGC
98594118 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
98594134 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
98594150 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
98594166 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
98594182 TGTA
1 TGTA
98594186 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:98594225 original size:45 final size:41
Alignment explanation
Indices: 98594166--98594275 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
98594156 GGATTAGAGG
*
98594166 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
98594208 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
98594251 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
98594276 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:98594438 original size:16 final size:16
Alignment explanation
Indices: 98594401--98594442 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
98594391 TTAATCATAT
*
98594401 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
98594417 TT-AAATATATTATAA
1 TTAAAATATATTATAA
98594432 TTAAAATATAT
1 TTAAAATATAT
98594443 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:98594449 original size:14 final size:15
Alignment explanation
Indices: 98594410--98594451 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
98594400 TTTAAACATA
*
98594410 ATTATTATTAAATAT
1 ATTATAATTAAATAT
98594425 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
98594439 A-TATAATTTAATA
1 ATTATAATTAAATA
98594452 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:98594501 original size:61 final size:61
Alignment explanation
Indices: 98594436--98594623 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
98594426 TTATAATTAA
98594436 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
98594497 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
98594556 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
98594617 AATATAT
1 AATATAT
98594624 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 24 0.25
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:98594549 original size:120 final size:120
Alignment explanation
Indices: 98594404--98594633 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
98594394 ATCATATTTA
98594404 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
98594469 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
98594524 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
98594589 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
98594634 TTTACTCAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:98594569 original size:14 final size:15
Alignment explanation
Indices: 98594520--98594571 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
98594510 ATAAAATATA
98594520 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
98594535 TATTAAATATATTAT
1 AATTAAATATATTAT
98594550 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
98594563 AATTTAATA
1 AATTAAATA
98594572 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:98594622 original size:59 final size:59
Alignment explanation
Indices: 98594439--98594622 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
98594429 TAATTAAAAT
98594439 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
98594498 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
98594557 AT-
57 ATA
98594559 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
98594618 ATATA
1 ATATA
98594623 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:98597592 original size:66 final size:66
Alignment explanation
Indices: 98597510--98597642 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
98597500 TATTGGCTAT
98597510 GCCAATACACCCAACCAAACATGCCGTAAGGTGCCCCTATATACATGCCACATTTAGACACAAAG
1 GCCAATACACCCAACCAAACATGCCGTAAGGTGCCCCTATATACATGCCACATTTAGACACAAAG
98597575 A
66 A
98597576 GCCAATACACCCAACCAAACATGCCGTAAGGTGCCCCTATATACATGCCACATTTAGACACAAAG
1 GCCAATACACCCAACCAAACATGCCGTAAGGTGCCCCTATATACATGCCACATTTAGACACAAAG
98597641 A
66 A
98597642 G
1 G
98597643 TGCAATTCTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.17
Consensus pattern (66 bp):
GCCAATACACCCAACCAAACATGCCGTAAGGTGCCCCTATATACATGCCACATTTAGACACAAAG
A
Found at i:98599608 original size:10 final size:9
Alignment explanation
Indices: 98599582--98599617 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
98599572 GCCTAGGTGA
98599582 TTTATAATT
1 TTTATAATT
98599591 TTTATAATT
1 TTTATAATT
98599600 TTTATTAATT
1 TTTA-TAATT
98599610 TTATATAA
1 TT-TATAA
98599618 AATAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.52
10 10 0.40
11 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:98601180 original size:19 final size:22
Alignment explanation
Indices: 98601139--98601182 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
98601129 ATTTTGATTG
*
98601139 ATTGAATTTATTTTTAATATCA
1 ATTGAATTTATTTTAAATATCA
98601161 ATTG-ATTT-TTTTAAAT-TCA
1 ATTGAATTTATTTTAAATATCA
98601180 ATT
1 ATT
98601183 CACTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 4 0.19
22 4 0.19
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTGAATTTATTTTAAATATCA
Found at i:98615212 original size:44 final size:44
Alignment explanation
Indices: 98615151--98615241 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
98615141 GCAACACATT
* * *
98615151 ATAGCATATCAACTTTCATAACGAAGCATAACTTATAAGATATC
1 ATAGCATATCAACTTTCATAACGAAACATAACTTATAACATAAC
* ** *
98615195 ATAGCATATTAGA-TTTCATATGGAAACATATCTTATAACATAAC
1 ATAGCATATCA-ACTTTCATAACGAAACATAACTTATAACATAAC
98615239 ATA
1 ATA
98615242 TCCTACCCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (44 bp):
ATAGCATATCAACTTTCATAACGAAACATAACTTATAACATAAC
Found at i:98624174 original size:22 final size:21
Alignment explanation
Indices: 98624139--98624214 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
98624129 AAAAGGTATC
* *
98624139 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
98624160 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
98624183 TTCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
98624202 TGC-AATCATATCT
1 TACAAATCATATCT
98624215 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 10 0.22
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:98624228 original size:17 final size:18
Alignment explanation
Indices: 98624175--98624246 Score: 101
Period size: 17 Copynumber: 3.9 Consensus size: 18
98624165 AATCATATCT
*
98624175 TCTAAGATTTCATATCATA
1 TCTAAGATTGC-TATCATA
*
98624194 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
98624212 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
98624229 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
98624247 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 16 0.33
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:98624642 original size:45 final size:45
Alignment explanation
Indices: 98624576--98624775 Score: 233
Period size: 45 Copynumber: 4.5 Consensus size: 45
98624566 GGAAGGCGAT
* * * *
98624576 ATCTGCTATCTTTGATTTGCTCACCGTCTAATACAGGGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
98624621 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
98624666 ATCTGCT-CCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
98624710 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
98624755 ATCTG-TCATCTTGGATCTGCT
1 ATCTGCT-ATCTTCGATCTGCT
98624776 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 40 0.30
45 95 0.70
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:98624709 original size:89 final size:89
Alignment explanation
Indices: 98624593--98624759 Score: 235
Period size: 89 Copynumber: 1.9 Consensus size: 89
98624583 ATCTTTGATT
* *** *
98624593 TGCTCACCGTCTAATACAGGGACGCCAAATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
98624658 GACGCCAAATCTGCTCCTTCAATC
66 GACGCCAAATCTGCTCCTTCAATC
* * * * *
98624682 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
*
98624747 GATGCCAAATCTG
66 GACGCCAAATCTG
98624760 TCATCTTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (89 bp):
TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
GACGCCAAATCTGCTCCTTCAATC
Found at i:98624927 original size:78 final size:77
Alignment explanation
Indices: 98624792--98625083 Score: 406
Period size: 78 Copynumber: 3.7 Consensus size: 77
98624782 TAAACACATA
* *
98624792 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGTGATGCTAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC-AAATCATCTTGG
98624857 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * * *
98624870 AAGGTCTA-ATATGTTATGTCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTG
1 AAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTG
*
98624934 AATCTGCTTCAATG
64 GATCTGCTTCAATG
*
98624948 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGG
98625013 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * **
98625026 AAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATC
98625084 TATTTTTTCG
Statistics
Matches: 189, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
77 1 0.01
78 186 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (77 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCAAATCATCTTGGA
TCTGCTTCAATG
Found at i:98625286 original size:78 final size:78
Alignment explanation
Indices: 98625157--98625448 Score: 442
Period size: 78 Copynumber: 3.7 Consensus size: 78
98625147 TAAACACGTA
98625157 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
98625222 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * *
98625235 AAGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
98625299 GATCTGCTTCAATG
65 GATCTGCTTCAATG
** * * *
98625313 AAGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
98625378 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * * * **
98625391 AAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
98625449 TATTTCTTCG
Statistics
Matches: 194, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATG
Found at i:98625438 original size:365 final size:364
Alignment explanation
Indices: 98624760--98625781 Score: 1724
Period size: 365 Copynumber: 2.8 Consensus size: 364
98624750 GCCAAATCTG
* *
98624760 TCATCTTG-GATCTGCTTC-GATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCTGCT
1 TCATC-TGAGATCTGCTTCAG-CGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCT
* * * * *
98624823 CTCCGTCTAATACAGTGATGCTAAATCATCTTGGATCTGCTTCAATGAAGGTCTAATATGTTATG
64 CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATG
* * * *
98624888 TCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTGAATCTGCTTCAATGAAGGT
129 TCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGGATCTGCTTCAATGAAGGT
*
98624953 CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
193 CAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
98625018 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAAT
258 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAAT
* *
98625083 CTATTTTTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAA
323 CTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
98625125 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
1 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
*
98625190 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
*
98625255 TTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTGGATCTGCTTCAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATGC-AAATCATCTTGGATCTGCTTCAATGAAGGTCA
* * *
98625320 GATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGGATCTGCT
195 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
98625385 TCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
260 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
98625450 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
325 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
* * *
98625490 TCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCC
1 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
* * *
98625555 CCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAATGTCAAATCTGTTGTGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
* *
98625620 TTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGGATCTGCTTCAATGAAGGTCA
98625685 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
195 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
98625750 TCAATGAAGGTTAGATCTGCTATGTCTTCGAT
260 TCAATGAAGGTCAGATCTGCTATGTCTTCGAT
98625782 TTGTTCTCTA
Statistics
Matches: 619, Mismatches: 34, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
364 3 0.00
365 614 0.99
366 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (364 bp):
TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
TTCGATCTGCTCCCCGTCTAATACAGAGATGCAAATCATCTTGGATCTGCTTCAATGAAGGTCAG
ATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
CAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCTA
TTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
Found at i:98625659 original size:78 final size:78
Alignment explanation
Indices: 98625520--98625781 Score: 434
Period size: 78 Copynumber: 3.4 Consensus size: 78
98625510 CGTAAACACG
*
98625520 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
98625585 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * *
98625598 TGAATGTCAAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
*
98625663 GGATTTGCTTCAA
66 GGATCTGCTTCAA
* * *
98625676 TGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
98625741 GGATCTGCTTCAA
66 GGATCTGCTTCAA
*
98625754 TGAAGGTTAGATCTGCTATGTCTTCGAT
1 TGAAGGTCAGATCTGCTATGTCTTCGAT
98625782 TTGTTCTCTA
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 169 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:98625729 original size:287 final size:277
Alignment explanation
Indices: 98624884--98625735 Score: 912
Period size: 287 Copynumber: 3.0 Consensus size: 277
98624874 TCTAATATGT
* * *
98624884 TATGTCTTTGATCTGCTCCCC-ATCTAATACAAAGATGTCAAATCATCTT-GAATCTGCTTCAAT
1 TATGTCTTCGATCTGCTCCCCGA-CTAATACAGAGATGCCAAATCATCTTAG-ATCTGCTTCAAT
*
98624947 GAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
64 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
* * * * * *
98625012 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATG
129 GATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATG
* * ** * * ** *
98625077 CCAAATCTATTTTTTCGATTTG-TTCTCTGACA-GTACAGAGATGCCAAATCATCTGAGATCTGC
194 CCAAATC-A--TCTTGGATTTGCTTCAATGA-AGGT-C--AGAT--CTACTTGTCTTAGATCTGC
* * * * *
98625140 T-TCAG-CGTAA-ACACGTAAAGGTCAGATCTGC
250 TCTCCGTC-TAATACA-G-AGATGCCA-A-AT-C
* *
98625171 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGA
* * *
98625236 AGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTGG
66 AGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* * * *
98625300 ATCTGCTTCAATGAAGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATAC
130 ATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGC
* * * * *
98625365 CAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCG
195 CAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACT-TGTCTTAGATCTGCTCTCCGTCT
**
98625430 AATATGGAGATGCCAAATC
259 AATACAGAGATGCCAAATC
* * * * *
98625449 TATTTCTTCGATTTGTTCTCTGAC-AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGT
1 TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTT---C--
* *
98625513 AAACACGTGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAA
61 --A-A--TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
* *
98625578 TCATCTTGGATCTGCTTCAATGAATGTCAAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATA
121 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATA
*
98625643 TAGAGATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACTGTGTCTTCGATCTGC
186 TAGAGATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACT-TGTCTTAGATCTGC
*
98625708 TCCCCGTCTAATACAGAGATGCCAAATC
250 TCTCCGTCTAATACAGAGATGCCAAATC
98625736 ATCTTGGATC
Statistics
Matches: 479, Mismatches: 66, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
277 33 0.07
278 19 0.04
279 1 0.00
280 4 0.01
281 15 0.03
282 10 0.02
283 2 0.00
284 11 0.02
285 9 0.02
286 3 0.01
287 369 0.77
288 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (277 bp):
TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGA
AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCC
AAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACTTGTCTTAGATCTGCTCTCCGTCTAA
TACAGAGATGCCAAATC
Found at i:98625910 original size:87 final size:89
Alignment explanation
Indices: 98625802--98625963 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
98625792 ACAGTACAGA
* *
98625802 GATGCCAAATCATCTTAGATCTACTTC-A-GTGTAAACA-CGTGAAAGCCAAATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATC-CGAAAGCCAAATCTGCTATGTCT
98625864 TCGATCTGCTCCTTGTCAACGCAAG
65 TCGATCTGCTCCTTGTCAACGCAAG
* * ** *
98625889 GATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
98625954 CGATCTGCTC
66 CGATCTGCTC
98625964 TCCGTCGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 26 0.40
88 1 0.02
89 37 0.57
90 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
CGATCTGCTCCTTGTCAACGCAAG
Found at i:98625960 original size:89 final size:88
Alignment explanation
Indices: 98625755--98625963 Score: 239
Period size: 87 Copynumber: 2.4 Consensus size: 88
98625745 CTGCTTCAAT
* * *
98625755 GAAGGTTAGATCTGCTATGTCTTCGATTTG-TTCTCTAACAGTACAGAGATGCCAAATCATCTTA
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
* *
98625819 GATCTACTTCAGTGTAAACACGT
66 GATCTACTTCAGTGAAAACACGC
* ** * *
98625842 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAC-GCA-AG-GATGCCAAATCATCT
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCC-TCT-AACAGCACAGAGATGCCAAATCATCT
*
98625904 TGGATCTACTTCGATGTGAAAACATC-C
64 TAGATCTACTTC-A-GTGAAAACA-CGC
98625931 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
98625964 TCCGTCGAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
87 51 0.50
88 5 0.05
89 41 0.41
90 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (88 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
GATCTACTTCAGTGAAAACACGC
Found at i:98634420 original size:22 final size:21
Alignment explanation
Indices: 98634385--98634479 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
98634375 AAAAGGTATC
* *
98634385 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
98634406 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
98634429 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
98634448 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
98634466 TGCATATCATATCT
1 TACAAATCATATCT
98634480 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:98634428 original size:23 final size:22
Alignment explanation
Indices: 98634385--98634442 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
98634375 AAAAGGTATC
* *
98634385 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
98634406 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
98634429 TGCATATCATATCT
1 TACAAATCATATCT
98634443 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:98634445 original size:19 final size:19
Alignment explanation
Indices: 98634421--98634494 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
98634411 AATCATATCT
98634421 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
98634440 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
98634458 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
98634477 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
98634495 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:98634467 original size:37 final size:38
Alignment explanation
Indices: 98634414--98634494 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
98634404 ATTACAAAAT
98634414 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
98634450 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
98634487 CATATCAT
1 CATATCAT
98634495 TGAAGATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:98634514 original size:37 final size:37
Alignment explanation
Indices: 98634424--98634503 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
98634414 CATATCTTCT
* *
98634424 AAGATTGCATATCATATCTAAGATTGCAATCATATCT
1 AAGATTACATATCATATCTAAGATTGCAATCATATCG
*
98634461 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCTAAGATTGCA-ATCATATCG
98634497 AAGATTA
1 AAGATTA
98634504 TATTTCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 6 0.15
37 29 0.73
38 5 0.12
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGCAATCATATCG
Found at i:98635710 original size:11 final size:11
Alignment explanation
Indices: 98635696--98635723 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
98635686 ATTTTTTTAA
98635696 AATTTTTAAAT
1 AATTTTTAAAT
98635707 AATTTTTAAAT
1 AATTTTTAAAT
98635718 AATTTT
1 AATTTT
98635724 ATTTTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTTTAAAT
Found at i:98635740 original size:27 final size:27
Alignment explanation
Indices: 98635697--98635749 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
98635687 TTTTTTTAAA
*
98635697 ATTTTTAAATAATTTTTAAATAATTTT
1 ATTTTTAAATAAGTTTTAAATAATTTT
98635724 ATTTTTACAA-AAGTTTTAAATAATTT
1 ATTTTTA-AATAAGTTTTAAATAATTT
98635750 AAATAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTTTAAATAAGTTTTAAATAATTTT
Found at i:98635741 original size:38 final size:37
Alignment explanation
Indices: 98635684--98635767 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 37
98635674 ACTACTTTTA
** *
98635684 TTATTTTTTTAAAATTTTTAAATAATTTTTAAATAA-TT
1 TTATTTTTACAAAAGTTTTAAATAA--TTTAAATAACTT
98635722 TTATTTTTACAAAAGTTTTAAATAATTTAAATAACTT
1 TTATTTTTACAAAAGTTTTAAATAATTTAAATAACTT
98635759 TCTATTTTT
1 T-TATTTTT
98635768 TAGATTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
36 9 0.22
37 3 0.07
38 29 0.71
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (37 bp):
TTATTTTTACAAAAGTTTTAAATAATTTAAATAACTT
Found at i:98636596 original size:14 final size:14
Alignment explanation
Indices: 98636574--98636605 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
98636564 ACCCATTATT
*
98636574 TATATATATATAGA
1 TATAGATATATAGA
98636588 TATAGATATATAGA
1 TATAGATATATAGA
98636602 TATA
1 TATA
98636606 AAAAGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (14 bp):
TATAGATATATAGA
Found at i:98637544 original size:17 final size:17
Alignment explanation
Indices: 98637504--98637546 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
98637494 TTCCTCTTCA
* *
98637504 TCCTCTATTTATTTTCT
1 TCCTCTTTTTATTTTCC
*
98637521 TCCTCTTTTTCTTTTCC
1 TCCTCTTTTTATTTTCC
98637538 TCCTCTTTT
1 TCCTCTTTT
98637547 CTCTCATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (17 bp):
TCCTCTTTTTATTTTCC
Found at i:98639136 original size:32 final size:32
Alignment explanation
Indices: 98639095--98639166 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
98639085 TCACACTGAG
98639095 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
1 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
*
98639127 CTTTATAGGTCATGCGCCTATTCTATTTCCAT
1 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
98639159 CTTTATAG
1 CTTTATAG
98639167 ATAACCTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.44
Consensus pattern (32 bp):
CTTTATAGGTCATGCCCCTATTCTATTTCCAT
Found at i:98640874 original size:18 final size:18
Alignment explanation
Indices: 98640851--98640886 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
98640841 GATATGATAC
98640851 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
98640869 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
98640887 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:98641175 original size:22 final size:21
Alignment explanation
Indices: 98641140--98641215 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
98641130 AAAATGTATC
* *
98641140 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
98641161 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
98641184 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
98641203 TGC-AATCATATCT
1 TACAAATCATATCT
98641216 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:98641191 original size:17 final size:19
Alignment explanation
Indices: 98641176--98641264 Score: 143
Period size: 17 Copynumber: 4.9 Consensus size: 19
98641166 AATCATATCT
98641176 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
98641195 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
98641213 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
98641230 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
98641247 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
98641265 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 33 0.49
18 16 0.24
19 18 0.27
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:98641272 original size:34 final size:37
Alignment explanation
Indices: 98641176--98641264 Score: 148
Period size: 35 Copynumber: 2.5 Consensus size: 37
98641166 AATCATATCT
98641176 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
*
98641213 TCTAAGATTG--TATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
98641247 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
98641265 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
34 16 0.33
35 17 0.35
36 6 0.12
37 10 0.20
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (37 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
Found at i:98641666 original size:45 final size:46
Alignment explanation
Indices: 98641615--98641753 Score: 169
Period size: 45 Copynumber: 3.1 Consensus size: 46
98641605 GGAAGGCGAT
*
98641615 ATCTGCTATCTTTC-ATCTCCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
* * *
98641660 ATCTGCT-T-TTTCAACCTTCTCCCCATCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
* * * * *
98641704 ATCTGTTATC-TCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
98641749 ATCTG
1 ATCTG
98641754 TCATCTTGGA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
43 4 0.05
44 34 0.43
45 42 0.52
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (46 bp):
ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
Found at i:98641912 original size:78 final size:78
Alignment explanation
Indices: 98641783--98642232 Score: 625
Period size: 78 Copynumber: 5.8 Consensus size: 78
98641773 ATGTAAACAC
* * * * *
98641783 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCTTCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
98641848 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
98641861 ATGAAGGCCCA-ATCTGTTATGTCTTTGATCTGCTCCATGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGG-TCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
98641925 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
98641939 ATGAAGGTTAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATTCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
98642004 TAGATCTACTTCA
66 TGGATCTGCTTCA
* * **
98642017 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
98642082 TGGATCTACTTCA
66 TGGATCTGCTTCA
* *
98642095 ATGAAGGTCCA-ATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
98642159 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * **
98642173 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
98642233 TTGTTTCTTC
Statistics
Matches: 328, Mismatches: 40, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
77 3 0.01
78 321 0.98
79 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:98642205 original size:234 final size:234
Alignment explanation
Indices: 98641783--98642232 Score: 693
Period size: 234 Copynumber: 1.9 Consensus size: 234
98641773 ATGTAAACAC
* * *
98641783 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCTTCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCATCT
* * *
98641848 TGGATCTGCTTCAATGAAGGCCCAATCTGTTATGTCTTTGATCTGCTCCATGTCTAATACAGAGA
66 TGGATCTACTTCAATGAAGGCCCAATCTGTTATGTCTTCGATCTGCTCCACGTCTAATACAGAGA
* * *
98641913 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTTAGATCTGCTGTGTCTTTGATCTGCTCCCCG
131 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
* *
98641978 TCTAATACAGAGATTCCAAATCATCTTAGATCTACTTCA
196 TCGAATACAGAGATGCCAAATCATCTTAGATCTACTTCA
* * * * **
98642017 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCATCT
* * *
98642082 TGGATCTACTTCAATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
66 TGGATCTACTTCAATGAAGGCCCAATCTGTTATGTCTTCGATCTGCTCCACGTCTAATACAGAGA
*
98642147 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCG
131 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
**
98642212 TCGAATATGGAGATGCCAAAT
196 TCGAATACAGAGATGCCAAAT
98642233 TTGTTTCTTC
Statistics
Matches: 193, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
234 193 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (234 bp):
ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCATCT
TGGATCTACTTCAATGAAGGCCCAATCTGTTATGTCTTCGATCTGCTCCACGTCTAATACAGAGA
TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
TCGAATACAGAGATGCCAAATCATCTTAGATCTACTTCA
Found at i:98642574 original size:220 final size:220
Alignment explanation
Indices: 98642182--98642764 Score: 988
Period size: 220 Copynumber: 2.6 Consensus size: 220
98642172 AATGAAGGTC
*
98642182 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATTTGTTTCTTCGATT
1 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
* * *
98642247 TGTTCTCTGACAGTACAGAGATGCCAAAACATCTTAGATCTGCTTCAGCATAAACACGTGAAAGC
66 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
* *
98642312 CAAATCTGCTATGTCTTCGATCTGCTCCTTATAAATGCAAGGATGCCAAATCATCTTGGATCTAC
131 CAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTAC
98642377 TTCGATGTGAAAACATCCGAAGATT
196 TTCGATGTGAAAACATCCGAAGATT
*
98642402 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATGCCAAATCTGTTTCTTCGATT
1 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
*
98642467 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGG
66 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
* *
98642532 CAAATCTGCTATGTCTTCGATCTACTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTAC
131 CAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTAC
* *
98642597 TTTGATGTGAAAACATCCGAAGGTT
196 TTCGATGTGAAAACATCCGAAGATT
98642622 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
1 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
* ** * * *
98642687 TGTTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCTG-AAGG
66 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
98642751 TCAAATCTGCTATG
131 -CAAATCTGCTATG
98642765 CTTTAGCCTG
Statistics
Matches: 342, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
219 4 0.01
220 338 0.99
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (220 bp):
AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
CAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTAC
TTCGATGTGAAAACATCCGAAGATT
Found at i:98648929 original size:17 final size:17
Alignment explanation
Indices: 98648907--98648939 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98648897 GATATGATAC
98648907 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
98648924 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
98648940 AACAGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:98648940 original size:18 final size:17
Alignment explanation
Indices: 98648907--98648940 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
98648897 GATATGATAC
*
98648907 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
98648924 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
98648941 ACAGGGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:98649229 original size:22 final size:22
Alignment explanation
Indices: 98649194--98649251 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
98649184 AAAAGGTATC
* *
98649194 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
98649215 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
98649238 TGCATATCATATCT
1 TACAAATCATATCT
98649252 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:98649286 original size:35 final size:37
Alignment explanation
Indices: 98649230--98649320 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
98649220 AATCATATCT
*
98649230 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATACCATA
98649267 TCTAAGATTG-TATCATATCTAAGATTGCATACCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATACCATA
98649303 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
98649321 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATACCATA
Found at i:98649328 original size:17 final size:19
Alignment explanation
Indices: 98649230--98649320 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
98649220 AATCATATCT
98649230 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
98649249 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
98649267 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
98649284 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
98649303 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
98649321 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:98649969 original size:21 final size:21
Alignment explanation
Indices: 98649934--98649987 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
98649924 TCGAATCTTC
*
98649934 GACGTTGCAAACATCCTTCCAT
1 GACGTCGC-AACATCCTTCCAT
*
98649956 GACGTCGCAACATCTTTCCAT
1 GACGTCGCAACATCCTTCCAT
98649977 GACGTCGCAAC
1 GACGTCGCAAC
98649988 CTTACATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (21 bp):
GACGTCGCAACATCCTTCCAT
Found at i:98659542 original size:13 final size:13
Alignment explanation
Indices: 98659524--98659568 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
98659514 ATTTGCTTTC
98659524 AATTAAAATTATA
1 AATTAAAATTATA
*
98659537 AATTAAAA-AATA
1 AATTAAAATTATA
* *
98659549 ATTTAAAATTATC
1 AATTAAAATTATA
98659562 AATTAAA
1 AATTAAA
98659569 TTTTATTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:98660022 original size:20 final size:20
Alignment explanation
Indices: 98659997--98660048 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
98659987 AGCGCGGTTT
*
98659997 TTAATAA-TTTTTTATTTTTC
1 TTAATAATTTTTTTA-TATTC
98660017 TTAATAATTTTTTTATATTC
1 TTAATAATTTTTTTATATTC
*
98660037 TTATTAATTTTT
1 TTAATAATTTTT
98660049 AAATAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TTAATAATTTTTTTATATTC
Found at i:98660064 original size:18 final size:19
Alignment explanation
Indices: 98660043--98660080 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
98660033 ATTCTTATTA
98660043 ATTTTTAAAT-AATTTTAT
1 ATTTTTAAATAAATTTTAT
**
98660061 ATTTTTCTATAAATTTTAT
1 ATTTTTAAATAAATTTTAT
98660080 A
1 A
98660081 ATAGTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTAAATAAATTTTAT
Found at i:98676418 original size:33 final size:33
Alignment explanation
Indices: 98676381--98676471 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
98676371 CTCTGTTTCA
*
98676381 GGTTGCTGGACAGGAGCTGGGATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
98676414 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
98676447 GGTTACTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
98676472 CAAGAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.19, C:0.10, G:0.42, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:98683991 original size:10 final size:9
Alignment explanation
Indices: 98683976--98684029 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
98683966 TATAAGAATC
98683976 ATAAAAAATT
1 ATAAAAAA-T
*
98683986 ATAAAATAT
1 ATAAAAAAT
*
98683995 ATTAAAAAT
1 ATAAAAAAT
98684004 A-AAAAAAT
1 ATAAAAAAT
98684012 ATTAAAAAAT
1 A-TAAAAAAT
98684022 ATTAAAAA
1 A-TAAAAA
98684030 CCATTGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 7 0.18
9 9 0.24
10 22 0.58
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:98684009 original size:8 final size:9
Alignment explanation
Indices: 98683976--98684029 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
98683966 TATAAGAATC
98683976 ATAAAAAATT
1 ATAAAAAA-T
*
98683986 ATAAAATAT
1 ATAAAAAAT
*
98683995 ATTAAAAAT
1 ATAAAAAAT
98684004 A-AAAAAAT
1 ATAAAAAAT
98684012 ATTAAAAAAT
1 A-TAAAAAAT
*
98684022 ATTAAAAA
1 ATAAAAAA
98684030 CCATTGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 7 0.19
9 15 0.41
10 15 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:98684017 original size:27 final size:26
Alignment explanation
Indices: 98683976--98684029 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
98683966 TATAAGAATC
* *
98683976 ATAAAAAATTATAAAATATATTAAAA
1 ATAAAAAAATATAAAAAATATTAAAA
98684002 ATAAAAAAATATTAAAAAATATTAAAA
1 ATAAAAAAATA-TAAAAAATATTAAAA
98684029 A
1 A
98684030 CCATTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
ATAAAAAAATATAAAAAATATTAAAA
Found at i:98685048 original size:43 final size:43
Alignment explanation
Indices: 98684989--98685074 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
98684979 ATGCGTCGTA
98684989 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
98685032 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
98685075 CATTTGAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (43 bp):
ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
Found at i:98686716 original size:31 final size:31
Alignment explanation
Indices: 98686680--98686741 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
98686670 GGACAAAATA
* *
98686680 TTCTTTTTTTTTCCCTTTC-CTCGCCTTTTCT
1 TTCTTTTCTTATCCCTTTCTCTC-CCTTTTCT
*
98686711 TTCTTTTCTTATCTCTTTCTCTCCCTTTTCT
1 TTCTTTTCTTATCCCTTTCTCTCCCTTTTCT
98686742 CCCCTCTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.65
Consensus pattern (31 bp):
TTCTTTTCTTATCCCTTTCTCTCCCTTTTCT
Found at i:98688672 original size:13 final size:14
Alignment explanation
Indices: 98688656--98688694 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
98688646 AAAAAATTAA
98688656 TTATTTATAAA-AT
1 TTATTTATAAATAT
98688669 TTATTTATAAATAT
1 TTATTTATAAATAT
* *
98688683 TAAATTATAAAT
1 TTATTTATAAAT
98688695 TACATTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATTTATAAATAT
Found at i:98698404 original size:16 final size:16
Alignment explanation
Indices: 98698380--98698416 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
98698370 AAATTTTCAA
*
98698380 TTCATTTAAATTATTT
1 TTCAATTAAATTATTT
98698396 TTCAATTAAATTATTT
1 TTCAATTAAATTATTT
98698412 TTCAA
1 TTCAA
98698417 AATTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (16 bp):
TTCAATTAAATTATTT
Found at i:98706843 original size:21 final size:21
Alignment explanation
Indices: 98706816--98706890 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
98706806 AACCAGGTCT
*
98706816 TGGAGGTGGAGCAGCATACTG
1 TGGAGGTGGAGCAGCATATTG
*
98706837 CGGAGGTGGAGCAGCATATTG
1 TGGAGGTGGAGCAGCATATTG
98706858 TGGAGGTGGAGCAGCATATTG
1 TGGAGGTGGAGCAGCATATTG
98706879 TGGAGGTGGAGC
1 TGGAGGTGGAGC
98706891 CATGACTGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.23, C:0.12, G:0.45, T:0.20
Consensus pattern (21 bp):
TGGAGGTGGAGCAGCATATTG
Found at i:98708140 original size:6 final size:6
Alignment explanation
Indices: 98708129--98708164 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
98708119 ACAATGCCTT
98708129 TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA
1 TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA
98708165 CATTAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
TGGCTA
Found at i:98711382 original size:9 final size:9
Alignment explanation
Indices: 98711368--98711392 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
98711358 TATAAGAGCT
98711368 GAAGAAGGA
1 GAAGAAGGA
98711377 GAAGAAGGA
1 GAAGAAGGA
98711386 GAAGAAG
1 GAAGAAG
98711393 ACGTAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
GAAGAAGGA
Found at i:98713540 original size:21 final size:21
Alignment explanation
Indices: 98713516--98713556 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
98713506 GTGATGGCAC
*
98713516 CACCTCCACATTATGCTGCTG
1 CACCTCCACAGTATGCTGCTG
98713537 CACCTCCACAGTATGCTGCT
1 CACCTCCACAGTATGCTGCT
98713557 CCGCCTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.39, G:0.15, T:0.27
Consensus pattern (21 bp):
CACCTCCACAGTATGCTGCTG
Found at i:98713563 original size:21 final size:21
Alignment explanation
Indices: 98713515--98713563 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
98713505 AGTGATGGCA
*
98713515 CCACCTCCACATTATGCTGCT
1 CCACCTCCACAGTATGCTGCT
*
98713536 GCACCTCCACAGTATGCTGCT
1 CCACCTCCACAGTATGCTGCT
*
98713557 CCGCCTC
1 CCACCTC
98713564 TAAGGCCTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.45, G:0.14, T:0.24
Consensus pattern (21 bp):
CCACCTCCACAGTATGCTGCT
Found at i:98714912 original size:3 final size:3
Alignment explanation
Indices: 98714904--98715082 Score: 166
Period size: 3 Copynumber: 59.7 Consensus size: 3
98714894 TTAATTCATT
* * * *
98714904 TTA TTA TTA TT- TTA CTA TTA TTTA TTA TCA TCA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
98714949 TTA TTA TT- TTT TTA CTA TTA CTA TTA TTT TCTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * **
98714994 TTA TTA CTA TCA TTA TTA TTA TTA TTA TTG TTA TTA TTA CTA TTA CGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
98715042 TT- TCTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98715083 TTTAAACCAT
Statistics
Matches: 141, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
2 5 0.04
3 130 0.92
4 6 0.04
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:98714945 original size:54 final size:53
Alignment explanation
Indices: 98714886--98715019 Score: 118
Period size: 51 Copynumber: 2.5 Consensus size: 53
98714876 TTCGACTATT
*
98714886 TTATTAAATTAATTCATTTTATTATTATTTTACTATTATTTAT-TATCATCATTA
1 TTATT-AATTAATTCATTTTATTATTATTTTACTATTATTT-TCTATCATCATAA
* * * *
98714940 TTATTACTATT-ATT-ATTTTTTTACTA--TTACTATTATTTTCTATTATTATAA
1 TTATTA--ATTAATTCATTTTATTATTATTTTACTATTATTTTCTATCATCATAA
*
98714991 TTATT-ATTACTATCATTATTATTATTATT
1 TTATTAATTAAT-TCATT-TTATTATTATT
98715020 ATTGTTATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
48 3 0.05
49 1 0.02
50 2 0.03
51 28 0.44
52 7 0.11
53 11 0.17
54 8 0.13
55 3 0.05
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (53 bp):
TTATTAATTAATTCATTTTATTATTATTTTACTATTATTTTCTATCATCATAA
Found at i:98715224 original size:23 final size:23
Alignment explanation
Indices: 98715194--98715254 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
98715184 TATTCCGTTA
98715194 TTTTATTTATTTATTTATT-TCAT
1 TTTTATTTATTTATTT-TTCTCAT
98715217 TTTTATTTTATTT-TTTTTCTCAT
1 TTTTA-TTTATTTATTTTTCTCAT
*
98715240 TATTA-TTATCTTATT
1 TTTTATTTAT-TTATT
98715255 ATATATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 18 0.55
24 7 0.21
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTATTTATTTATTTTTCTCAT
Found at i:98721149 original size:18 final size:18
Alignment explanation
Indices: 98721120--98721229 Score: 112
Period size: 18 Copynumber: 6.1 Consensus size: 18
98721110 TACGACCGTT
*
98721120 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
98721138 TATGGCACTATTCACATA
1 TACGGCACTATTCACGTA
* *
98721156 TACGGTACTATTCATGTA
1 TACGGCACTATTCACGTA
* *
98721174 TACGACACTATTCACATA
1 TACGGCACTATTCACGTA
* * *
98721192 TATGGTACTATTCATGTA
1 TACGGCACTATTCACGTA
* *
98721210 TACGGCACTGTTGACGTA
1 TACGGCACTATTCACGTA
98721228 TA
1 TA
98721230 TAGTAGTTGG
Statistics
Matches: 71, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 71 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:98721167 original size:36 final size:36
Alignment explanation
Indices: 98721120--98721218 Score: 162
Period size: 36 Copynumber: 2.8 Consensus size: 36
98721110 TACGACCGTT
* *
98721120 TACGGTACTATTCACGTATATGGCACTATTCACATA
1 TACGGTACTATTCATGTATACGGCACTATTCACATA
*
98721156 TACGGTACTATTCATGTATACGACACTATTCACATA
1 TACGGTACTATTCATGTATACGGCACTATTCACATA
*
98721192 TATGGTACTATTCATGTATACGGCACT
1 TACGGTACTATTCATGTATACGGCACT
98721219 GTTGACGTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (36 bp):
TACGGTACTATTCATGTATACGGCACTATTCACATA
Found at i:98721229 original size:54 final size:54
Alignment explanation
Indices: 98721126--98721229 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
98721116 CGTTTACGGT
* * *
98721126 ACTATTCACGTATATGGCACTATTCACATATACGGTACTATTCATGTATACGAC
1 ACTATTCACATATATGGCACTATTCACATATACGGCACTATTCACGTATACGAC
* ** * *
98721180 ACTATTCACATATATGGTACTATTCATGTATACGGCACTGTTGACGTATA
1 ACTATTCACATATATGGCACTATTCACATATACGGCACTATTCACGTATA
98721230 TAGTAGTTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (54 bp):
ACTATTCACATATATGGCACTATTCACATATACGGCACTATTCACGTATACGAC
Found at i:98739515 original size:12 final size:12
Alignment explanation
Indices: 98739498--98739527 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
98739488 ATTTATCAAG
98739498 ATAAATATTAGA
1 ATAAATATTAGA
98739510 ATAAATATTAGA
1 ATAAATATTAGA
*
98739522 TTAAAT
1 ATAAAT
98739528 TTAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
ATAAATATTAGA
Found at i:98739625 original size:20 final size:19
Alignment explanation
Indices: 98739575--98739626 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
98739565 CTACAAGATA
98739575 AATATTAAATT-A-ACTTT
1 AATATTAAATTAATACTTT
98739592 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-ACTTT
98739612 AATATTAAATTAATA
1 AATATTAAATTAATA
98739627 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 2 0.07
20 17 0.57
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATACTTT
Found at i:98741317 original size:16 final size:16
Alignment explanation
Indices: 98741296--98741326 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98741286 CTATGTATGC
*
98741296 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
98741312 AAAATACAAAAGACA
1 AAAATACAAAAGACA
98741327 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:98748408 original size:16 final size:17
Alignment explanation
Indices: 98748377--98748409 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98748367 TCTTTTTTTC
*
98748377 ATTATTTTTTCATTTAT
1 ATTATTTTCTCATTTAT
98748394 ATTATTTTCTC-TTTAT
1 ATTATTTTCTCATTTAT
98748410 TTTTTCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTATTTTCTCATTTAT
Found at i:98755195 original size:27 final size:27
Alignment explanation
Indices: 98755157--98755210 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
98755147 AACATAAAGC
98755157 AATACTATGATAAAAGTTCCACTATCA
1 AATACTATGATAAAAGTTCCACTATCA
*
98755184 AATACTATGATAAAATTTCCACTATCA
1 AATACTATGATAAAAGTTCCACTATCA
98755211 TAACTTCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
AATACTATGATAAAAGTTCCACTATCA
Found at i:98758930 original size:27 final size:26
Alignment explanation
Indices: 98758898--98758984 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 26
98758888 GCCGTGTGTC
98758898 CCCTATTTTTCAAATTTTACAGTTTT
1 CCCTATTTTTCAAATTTTACAGTTTT
98758924 CCTCTATTTTT-AAGATTTTACAGTTTTAT
1 CC-CTATTTTTCAA-ATTTTACAG-TTT-T
* *
98758953 CCCATATTTTACAAATTTTATAGTTTT
1 CCC-TATTTTTCAAATTTTACAGTTTT
*
98758980 ACCTA
1 CCCTA
98758985 GAATTTTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
26 6 0.12
27 20 0.38
28 7 0.13
29 17 0.33
30 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (26 bp):
CCCTATTTTTCAAATTTTACAGTTTT
Found at i:98758970 original size:29 final size:28
Alignment explanation
Indices: 98758898--98758980 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
98758888 GCCGTGTGTC
*
98758898 CCCTATTTTTCAAATTTTACAG-TTT-T
1 CCCTATTTTACAAATTTTACAGTTTTAT
*
98758924 CCTCTATTTTTA-AGATTTTACAGTTTTAT
1 CC-CTA-TTTTACAAATTTTACAGTTTTAT
*
98758953 CCCATATTTTACAAATTTTATAGTTTTA
1 CCC-TATTTTACAAATTTTACAGTTTTA
98758981 CCTAGAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 2 0.04
27 13 0.28
28 13 0.28
29 19 0.40
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.53
Consensus pattern (28 bp):
CCCTATTTTACAAATTTTACAGTTTTAT
Found at i:98758990 original size:29 final size:28
Alignment explanation
Indices: 98758902--98758992 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
98758892 TGTGTCCCCT
* *
98758902 ATTTTTCAAATTTTACAGTTTT-CCTCTA
1 ATTTTACAAATTTTACAGTTTTACCT-AA
* * * *
98758930 TTTTTA-AGATTTTACAGTTTTATCCCAT
1 ATTTTACAAATTTTACAGTTTTA-CCTAA
*
98758958 ATTTTACAAATTTTATAGTTTTACCTAGA
1 ATTTTACAAATTTTACAGTTTTACCTA-A
98758987 ATTTTA
1 ATTTTA
98758993 TGATTTGTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
27 14 0.29
28 12 0.25
29 22 0.46
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTTTACAAATTTTACAGTTTTACCTAA
Found at i:98761427 original size:24 final size:24
Alignment explanation
Indices: 98761382--98761428 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
98761372 AGTATGGTGT
*
98761382 TGGAAATATATACATGGGATAATA
1 TGGAAATATATACATAGGATAATA
* *
98761406 TGGAAATATGTACATAGTATAAT
1 TGGAAATATATACATAGGATAAT
98761429 GTTAAGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (24 bp):
TGGAAATATATACATAGGATAATA
Found at i:98761874 original size:26 final size:25
Alignment explanation
Indices: 98761829--98761889 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
98761819 TGAAACAGTA
* *
98761829 AAAGAAATATATTAACAAATAATAT
1 AAAGATATATATTAACAAATAACAT
98761854 AAAGATATATATATATA-AAATAACAT
1 AAAGATATATAT-TA-ACAAATAACAT
98761880 AGAA-ATATAT
1 A-AAGATATAT
98761890 GAATAGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 11 0.35
26 17 0.55
27 3 0.10
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAGATATATATTAACAAATAACAT
Found at i:98762812 original size:16 final size:16
Alignment explanation
Indices: 98762770--98762813 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
98762760 AAAGAAAAAA
*
98762770 AAAAGAGAGAAGGGAG
1 AAAAGAGAGAGGGGAG
98762786 AAAAGAGAGAGGGGAG
1 AAAAGAGAGAGGGGAG
*
98762802 AAAGGAGAGAGG
1 AAAAGAGAGAGG
98762814 AATTCCGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (16 bp):
AAAAGAGAGAGGGGAG
Found at i:98764741 original size:18 final size:18
Alignment explanation
Indices: 98764705--98764747 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
98764695 AACAAAATAA
* *
98764705 TTTTAATAATTTTTTTAT
1 TTTTAATAATTTATATAT
98764723 TTTTAATAATTTATATAT
1 TTTTAATAATTTATATAT
*
98764741 TTCTAAT
1 TTTTAAT
98764748 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATAATTTATATAT
Found at i:98769452 original size:18 final size:18
Alignment explanation
Indices: 98769429--98769463 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
98769419 ACCAAATATT
*
98769429 TATTTTAATTTTTTTATA
1 TATTTTAATTTTATTATA
98769447 TATTTTAATTTTATTAT
1 TATTTTAATTTTATTAT
98769464 GCGCATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTAATTTTATTATA
Found at i:98776886 original size:46 final size:46
Alignment explanation
Indices: 98776819--98776993 Score: 244
Period size: 46 Copynumber: 3.8 Consensus size: 46
98776809 AGTGTGCTCT
* *
98776819 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
98776865 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
98776911 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
98776957 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
98776994 TATGACATCG
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 117 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:98790221 original size:43 final size:43
Alignment explanation
Indices: 98790166--98790344 Score: 265
Period size: 43 Copynumber: 4.2 Consensus size: 43
98790156 GGTACCTACA
*
98790166 TTATATACTTCAAATTATTATATCTTGTTTATTTTGAAATTAT
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
*
98790209 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAC
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
* *
98790252 TTATATACTTCAAACTATTATATCTTATTTCTTTTGAAATTAT
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
* *
98790295 TTATATACTTTAAACTT-TTATA-CATTATTTATTTTG-GATTAT
1 TTATATACTTCAAA-TTATTATATC-TTATTTATTTTGAAATTAT
98790337 TTATATAC
1 TTATATAC
98790345 ATATGTTTTT
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
42 14 0.11
43 110 0.88
44 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (43 bp):
TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
Found at i:98790460 original size:26 final size:26
Alignment explanation
Indices: 98790422--98790506 Score: 86
Period size: 24 Copynumber: 3.4 Consensus size: 26
98790412 TTCTAATTAT
* *
98790422 TTTTATACGTTATTTATGTTAAACCA
1 TTTTATATGTTATTTATGTTATACCA
* * **
98790448 TTTTATATATTATCTAT-TT-TACGT
1 TTTTATATGTTATTTATGTTATACCA
*
98790472 TTTTATATGTTATTT-TGTTATACTA
1 TTTTATATGTTATTTATGTTATACCA
98790497 TTTTATATGT
1 TTTTATATGT
98790507 GAATAATTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.02
24 17 0.36
25 15 0.32
26 14 0.30
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
TTTTATATGTTATTTATGTTATACCA
Found at i:98790516 original size:49 final size:50
Alignment explanation
Indices: 98790421--98790517 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 50
98790411 ATTCTAATTA
* *
98790421 TTTTTATACGTTATTTATGTTAAACCATTTTATATATTATCTATTTTACG
1 TTTTTATACGTTATTTATGTTAAACCATTTTATATATAATCAATTTTACG
* * * *
98790471 TTTTTATATGTTATTT-TGTTATACTATTTTATATGTGAAT-AATTTTA
1 TTTTTATACGTTATTTATGTTAAACCATTTTATATAT-AATCAATTTTA
98790518 AATTCTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 23 0.57
50 17 0.43
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (50 bp):
TTTTTATACGTTATTTATGTTAAACCATTTTATATATAATCAATTTTACG
Found at i:98793685 original size:131 final size:131
Alignment explanation
Indices: 98793444--98793709 Score: 372
Period size: 131 Copynumber: 2.0 Consensus size: 131
98793434 TATTCATTCA
* * * **
98793444 AAAATTCTTCAAAACGAAGATGAGATTCGATGTTTGGTGATTCGAGGAATCGTGCCCTAACGTGT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGGAATCGTGCCCTAACGTGT
* * * * *
98793509 TGGGTTGCAATTTCGCATTTGTTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
66 TGGGTTGCAATTTCGCATCTGTTCAAAATAATCGAATACCACTTCAAAATTCCACTCATATCTTC
98793574 T
131 T
* *
98793575 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGTGGAATTGTGCCCTAACGTGT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGGAATCGTGCCCTAACGTGT
* * * *
98793640 TGGTTTGCAATTTTGCGTCTGCTT-AAAATAATCGAATACCCCTTCAAAATTCCACTCATATCTT
66 TGGGTTGCAATTTCGCATCTG-TTCAAAATAATCGAATACCACTTCAAAATTCCACTCATATCTT
98793704 CT
130 CT
98793706 AAAA
1 AAAA
98793710 ATTATTTAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
131 116 0.98
132 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (131 bp):
AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCGCATCTGTTCAAAATAATCGAATACCACTTCAAAATTCCACTCATATCTTC
T
Found at i:98799884 original size:17 final size:18
Alignment explanation
Indices: 98799862--98799899 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
98799852 CCCCTCACTC
98799862 TCCACCTTTTTGTTT-TT
1 TCCACCTTTTTGTTTGTT
98799879 TCCACCTTTTTGTTTGTT
1 TCCACCTTTTTGTTTGTT
98799897 TCC
1 TCC
98799900 TCTTCACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.05, C:0.26, G:0.08, T:0.61
Consensus pattern (18 bp):
TCCACCTTTTTGTTTGTT
Found at i:98805813 original size:4 final size:4
Alignment explanation
Indices: 98805804--98805834 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
98805794 TTCAAACTTC
98805804 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
98805835 TAAAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:98819000 original size:26 final size:26
Alignment explanation
Indices: 98818964--98819047 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
98818954 CATGAAATTC
98818964 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
98818990 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
98819016 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98819042 TTATCA
1 TTATCA
98819048 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98827878 original size:28 final size:28
Alignment explanation
Indices: 98827846--98827899 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
98827836 TTAATTGTCT
*
98827846 ATTTAATTATAAATTA-TTATATAATAAA
1 ATTTAATT-TAAACTATTTATATAATAAA
*
98827874 ATTTAATTTAAACTATTTTTATAATA
1 ATTTAATTTAAACTATTTATATAATA
98827900 GTTAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTAATTTAAACTATTTATATAATAAA
Found at i:98832463 original size:18 final size:18
Alignment explanation
Indices: 98832442--98832476 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98832432 ATGAATAATT
*
98832442 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
98832460 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
98832477 TGAATATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Found at i:98833373 original size:20 final size:20
Alignment explanation
Indices: 98833348--98833394 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
98833338 GGGTTGAGGA
98833348 CACGGGCGTGTCCCATGCCG
1 CACGGGCGTGTCCCATGCCG
* *
98833368 CACGGGCGTGTCCTATGTCG
1 CACGGGCGTGTCCCATGCCG
*
98833388 TACGGGC
1 CACGGGC
98833395 ATGTTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.34, G:0.36, T:0.19
Consensus pattern (20 bp):
CACGGGCGTGTCCCATGCCG
Found at i:98833803 original size:23 final size:23
Alignment explanation
Indices: 98833768--98833811 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
98833758 TTTAGGCAAT
98833768 AGAAGAAGAAGAAGAGAAAAAGA
1 AGAAGAAGAAGAAGAGAAAAAGA
* *
98833791 AGAAGGAGGAGAAGAGAAAAA
1 AGAAGAAGAAGAAGAGAAAAA
98833812 ATAGATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (23 bp):
AGAAGAAGAAGAAGAGAAAAAGA
Found at i:98838951 original size:17 final size:16
Alignment explanation
Indices: 98838929--98838971 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
98838919 TTTAGGGCCT
98838929 AAATTGAATAAATTGCA
1 AAATTGAATAAATTG-A
*
98838946 AAATTGGTATAAATTGA
1 AAATT-GAATAAATTGA
*
98838963 TAATTGAAT
1 AAATTGAAT
98838972 GTGAAATGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (16 bp):
AAATTGAATAAATTGA
Found at i:98850009 original size:33 final size:33
Alignment explanation
Indices: 98849964--98850030 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
98849954 TCCTTCGGGT
*
98849964 TAGCTCCTACCCGTTAAGATTTCTTTATGGAAG
1 TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
98849997 TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
1 TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
98850030 T
1 T
98850031 GGGAATGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (33 bp):
TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
Found at i:98855679 original size:13 final size:13
Alignment explanation
Indices: 98855663--98855695 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
98855653 TTTAATTAAA
*
98855663 TTAGTTAATTAGT
1 TTAGATAATTAGT
98855676 TTAGATAATTAGT
1 TTAGATAATTAGT
98855689 TTA-ATAA
1 TTAGATAA
98855696 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Done.